Microbial Extremophiles at the Limits of Life

Critical Reviews in Microbiology, 33:183–209, 2007 Copyright c Informa Healthcare ISSN: 1040-841X print / 1549-7828 online DOI: 10.1080/10408410701451948 Microbial Extremophiles at the Limits of Life Elena V. Pikuta and Richard B. Hoover National Space Sciences and Technology Center/NASA, Astrobiology Laboratory, Huntsville, Alabama, USA Jane Tang Noblis, Falls Church, Virginia, USA possible places on Earth interacting with the environment and Prokaryotic extremophiles were the first representatives of life within itself (cross species relations). In nature it is very rare on Earth and they are responsible for the genesis of geological when an ecotope is inhabited by a single species. As a rule, most structures during the evolution and creation of all currently known ecosystems contain the functionally related and evolutionarily ecosystems. Flexibility of the genome probably allowed life to adapt to a wide spectrum of extreme environments. As a result, modern adjusted communities (consortia and populations). In contrast prokaryotic diversity formed in a framework of physico-chemical to the multicellular structure of eukaryotes (tissues, organs, sys- factors, and it is composed of: thermophilic, psychrophilic, aci- tems of organs, whole organism), the highest organized form of dophilic, alkaliphilic, halophilic, barophilic, and radioresistant prokaryotic life in nature is presented by the benthic colonization species. This artificial systematics cannot reflect the multiple ac- in biofilms and microbial mats. In these complex structures all tions of different environmental factors since one organism could unite characteristics of several extreme-groups. In this review we microbial cells of different species are distributed in space and Downloaded By: [University of Alabama at Birmingham] At: 16:09 17 July 2007 show the current status of studies in all fields of extremophiles time according to their functions and to physicochemical gradi- and summarize the limits of life for different species of microbial ents that allow more effective system support, self-protection, extremophiles. We also discuss the finding of extremophiles from and energy distribution. In vitro, of course, the most primitive or- unusual places such as soils, and briefly review recent studies of ganized structure for bacterial and archaeal cultures is the colony, microfossils in meteorites in the context of the significance of microbial extremophiles to Astrobiology. the size, shape, color, consistency, and other specific characteristics which differ on the species or subspecies levels. In Table 1 all known types of microbial communities are shown (Pikuta Keywords Extremophiles; Microbial diversity; Astrobiology; Ecol- ogy of Microorganisms; Limits of Life et al. 2005b). Additional factors could be added to this classifi- cation Table 1: in deep-sea ecosystems (pressure), and in deep underground lithospheric ecosystems (pressure and radiation). INTRODUCTION Currently the best-studied ecosystems are: human body (due During Earth’s evolution, accompanied by geophysical and to the medical importance), and freshwater and marine ecosys- climatic changes, a number of ecosystems have been formed. tems (because of environmental concerns). For a long time, ex- These ecosystems differ by the broad variety of physicochemical tremophiles were terra incognita, since the environments with and biological factors composing our environment. Tradition- aggressive parameters (compared to the human body tempera- ally, pH and salinity are considered as geochemical extremes, as ture, pH, mineralization, and pressure) were considered a priori opposed to temperature, pressure, and radiation that are referred as a dead zone. It took time to find out that the environments with to as physical extremes (Van den Burg 2003). Life inhabits all extreme physico-chemical and climatic parameters are inhabited by a wide spectrum of different microorganisms. Extremophiles were discovered in the following chronological order: Received 2 February 2007; accepted 10 May 2007. Long ago it was known that many fungi could grow in We want to thank the reviewers for their helpful comments slightly acidic (pH 4–6) conditions, but the first obligately aci- and the NASA/MSFC Center Director’s Discretionary Fund and the dophilic bacterium to be described was Acidithiobacillus fer- NASA/JSC Center for Biomarkers in Astromaterials for support of this rooxidans (formally Thiobacillus ferrooxidans). Subsequently research. thermophilic lithotrophic acidophiles were found, and the hyper- Address correspondence to Elena V. Pikuta, Richard B. Hoover National Space Sciences and Technology Center/NASA, VP-62, 320 acidophilic species of the genus Picrophilus growing at neg- Sparkman Dr., Astrobiology Laboratory, Huntsville, AL 35805. E-mail: ative pH values were described in 1996 (Schleper et al. [email protected] or [email protected] 1996). 183 184 E. V. PIKUTA ET AL. TABLE 1 chrophilic microorganisms. Firstly in our Astrobiology Labo- Known types of microbial communities ratory at NASA/MSFC/NSSTC the aerobic and anaerobic bacterial growth (in pure culture) was determined at −5◦Cona NaCl, Temperature, ◦ liquid and solid media (Hoover et al. 2002; Pikuta and Hoover Types of communities pH %(w/v) C 2003; Pikuta et al. 2003b), and our Russian colleges successfully 1. Freshwater psychrophilic 5–7 0–1 <10 cultivated aerobic bacterial cultures on solid agar media also at −5◦C (Gilichinsky et al. 2005). The observations of living mi- 2. Freshwater, meso-thermal 15–40 ◦ 3. Freshwater moderately 50–60 croorganisms in situ at –20 C in highly mineralized media were thermophilic reported previously (Staley and Gosink 1999). 4. Freshwater thermophilic 70–110 The first mentioned alkaliphile was the bacterium Strepto- coccus faecalis (Downie and Cruickshank 1928), but several 5. Marine psychrophilic 8 3–4 <10 years earlier an article about alkalitolerant nitrifying bacteria 6. Marine, meso-thermal 15–40 was published (Meek and Lipman 1922). Extreme alkaliphiles 7. Marine moderately 50–60 belonging to genera Clostridium and Bacillus were isolated from thermophilic soils (Horikoshi and Akiba 1982), but truly alkaliphilic microor- 8. Marine thermophilic 70–120 ganisms belonging to separate genera such as Natronobacterium and Natronococcus were described later (Tindall et al. 1984). 9. Alkaliphilic psychrophilic 9–11 0–1 <10 Study of halophilic microorganisms has started from work 10. Alkaliphilic mesophilic 15–40 with saline soils and lakes, and now the record of good growth 11. Alkaliphilic moderately 50–60 for Haloferax mediterranei has been demonstrated at 30% NaCl. thermophilic The study of barophiles became possible after the develop- 12. Alkaliphilic thermophilic 70–110 ment of deep-ocean submersible crafts. In the Black Smokers 13. Haloalkaliphilic 9–10 3–25 <10 studies it was shown that there are microorganisms that require psychrophilic high pressure in addition to high temperature, and the highest 14. Haloalkaliphilic mesophilic 15–40 known limit of life was detected at 100 MPa (Yayanos et al. 15. Haloalkaliphilic moderately 50–60 1979). Downloaded By: [University of Alabama at Birmingham] At: 16:09 17 July 2007 thermophilic The first radioresistant bacterium Deinococcus radiodurans was found during the process of food conservation and stor- 16. Halophilic psychrophilic 8.0 3–30 <10 age. This bacterium could survive ionizing irradiation and other 17. Halophilic mesophilic 15–40 DNA-damaging assaults at doses that are lethal to all other or- 18. Halophilic moderately 50–60 ganisms (Raj et al. 1960). Among archaea the hyperthermophilic thermophilic sulfur-reducing Thermococcus gammatolerans that is capable of resisting 30 kGy of γ -irradiation was described comparatively 19. Acidophilic mesophilic 0–4 0–2 15–40 recently (Edmond et al. 2003). 20. Acidophilic moderately 50–60 Anaerobiosis, as an alternative to the aerobic life, was dis- thermophilic covered by Pasteur in his fermentation work (Pasteur 1861), 21. Acidophilic thermophilic 70–120 but an anaerobic technique for the cultivation of obligately anaerobic microorganisms was developed much later (Hungate The discovery of thermophilic bacteria is generally attributed 1969). Among the bacteria and archaea there are many anaerobic to Miquel (1888), but Brewer (1866) had already described ther- species, and most of them are not extremophiles. For this reason mophilic Chlamydobacteriales from the geysers of California. an anaerobiosis is not considered as imperative to extremophilic The modern epoch of the study of thermophilic microorganisms life. However, it should be remembered that the first life forms was triggered by the discovery of Thermus aquaticus (Brock and on early Earth were anaerobic extremophiles, and therefore, this Freeze 1969), and now the maximum temperature for growth at capacity is a very important issue for the logical discussion about 113◦C was found for Pyrolobus fumarii (Blöechl et al. 1997). the limits of life. Another hyperthermophilic microorganism, strain 121(not From the point of view of systematics, both eukaryotic and validly published) that was isolated by Kashefi and Loveley prokaryotic organisms represent life in extreme ecosystems, (2003) survives for short periods of time at 130◦C (Cowan 2004). and the comparison of all taxa in complex biocoenosis of each The first mention of the term “psychrophile” was made by ecosystem will provide answers to the fundamental questions Schmidt-Nielsen in 1902 for the description of bacteria capa-

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